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Mikhail M Savitski, Nico Zinn, Maria Faelth-Savitski, Daniel Poeckel, Stephan Gade, Isabelle Becher, Marcel Muelbaier, Anne J Wagner, Katrin Strohmer, Thilo Werner, Stephanie Melchert, Massimo Petretich, Anna Rutkowska, Johanna Vappiani, Holger Franken, Michael Steidel, Gavain M Sweetman, Omer Gilan, Enid Y N Lam, Mark A Dawson, Rab K Prinjha, Paola Grandi, Giovanna Bergamini, Marcus Bantscheff
Protein degradation plays important roles in biological processes and is tightly regulated. Further, targeted proteolysis is an emerging research tool and therapeutic strategy. However, proteome-wide technologies to investigate the causes and consequences of protein degradation in biological systems are lacking. We developed "multiplexed proteome dynamics profiling" (mPDP), a mass-spectrometry-based approach combining dynamic-SILAC labeling with isobaric mass tagging for multiplexed analysis of protein degradation and synthesis...
March 3, 2018: Cell
Suverna Trivedi, Ram Prasad
Compressed natural gas (CNG) is most appropriate an alternative of conventional fuel for automobiles. However, emissions of carbon-monoxide and methane from such vehicles adversely affect human health and environment. Consequently, to abate emissions from CNG vehicles, development of highly efficient and inexpensive catalysts is necessary. Thus, the present work attempts to scan the effects of precipitants (Na2 CO3 , KOH and urea) for nickel cobaltite (NiCo2 O4 ) catalysts prepared by co-precipitation from nitrate solutions and calcined in a lean CO-air mixture at 400°C...
March 2018: Journal of Environmental Sciences (China)
Joseph D Turner, Nicolas Pionnier, Julio Furlong-Silva, Hanna Sjoberg, Stephen Cross, Alice Halliday, Ana F Guimaraes, Darren A N Cook, Andrew Steven, Nico Van Rooijen, Judith E Allen, Stephen J Jenkins, Mark J Taylor
Eosinophils are effectors in immunity to tissue helminths but also induce allergic immunopathology. Mechanisms of eosinophilia in non-mucosal tissues during infection remain unresolved. Here we identify a pivotal function of tissue macrophages (Mϕ) in eosinophil anti-helminth immunity using a BALB/c mouse intra-peritoneal Brugia malayi filarial infection model. Eosinophilia, via C-C motif chemokine receptor (CCR)3, was necessary for immunity as CCR3 and eosinophil impairments rendered mice susceptible to chronic filarial infection...
March 16, 2018: PLoS Pathogens
Antoine Guérin, Gaspard Kerner, Nico Marr, Janet G Markle, Florence Fenollar, Natalie Wong, Sabri Boughorbel, Danielle T Avery, Cindy S Ma, Salim Bougarn, Matthieu Bouaziz, Vivien Beziat, Erika Della Mina, Carmen Oleaga-Quintas, Tomi Lazarovt, Lisa Worley, Tina Nguyen, Etienne Patin, Caroline Deswarte, Rubén Martinez-Barricarte, Soraya Boucherit, Xavier Ayral, Sophie Edouard, Stéphanie Boisson-Dupuis, Vimel Rattina, Benedetta Bigio, Guillaume Vogt, Frédéric Geissmann, Lluis Quintana-Murci, Damien Chaussabel, Stuart G Tangye, Didier Raoult, Laurent Abel, Jacinta Bustamante, Jean-Laurent Casanova
Most humans are exposed to Tropheryma whipplei (Tw). Whipple's disease (WD) strikes only a small minority of individuals infected with Tw (<0.01%), whereas asymptomatic chronic carriage is more common (<25%). We studied a multiplex kindred, containing four WD patients and five healthy Tw chronic carriers. We hypothesized that WD displays autosomal dominant (AD) inheritance, with age-dependent incomplete penetrance. We identified a single very rare non-synonymous mutation in the four patients: the private R98W variant of IRF4, a transcription factor involved in immunity...
March 14, 2018: ELife
Christine Lembke, Daniel Stettin, Franziska Speck, Nico Ueberschaar, Sam De Decker, Wim Vyverman, Georg Pohnert
Recently the first pheromone of a marine diatom was identified to be the diketopiperazine (S,S)-diproline. This compound facilitates attraction between mating partners in the benthic diatom Seminavis robusta. Interestingly, sexualized S. robusta cells are attracted to both the natural pheromone (S,S)-diproline as well as to its enantiomer (R,R)-diproline. Usually stereospecificity is a prerequisite for successful substrate-receptor interactions, and especially pheromone perception is often highly enantioselective...
March 14, 2018: Journal of Chemical Ecology
Lukas Nico Wirz, Maria Dimitrova, Heike Fliegl, Dage Sundholm
The topology of twisted molecular rings is characterized by the linking number, which is equal to the sum of the twist and writhe parameters. The twist is associated with the local twisting of the molecular frame, whereas the writhe is a global property of the molecular ring. The writhe represents the bending of the molecular ring, which increases π-electron stabilization as well as steric interactions and reduces the strain of twisted molecular rings. In this work, we investigate a number of cyclic all-trans C40 H40 annulenes with different topologies and their dications...
March 13, 2018: Journal of Physical Chemistry Letters
Nico van Zandwijk, Jennifer McDiarmid, Himanshu Brahmbhatt, Glen Reid
No abstract text is available yet for this article.
February 2018: Translational Lung Cancer Research
Tadafumi Sugimoto, Sébastien Robinet, Raluca Dulgheru, Anne Bernard, Federica Ilardi, Laura Contu, Karima Addetia, Luis Caballero, George Kacharava, George D Athanassopoulos, Daniele Barone, Monica Baroni, Nuno Cardim, Andreas Hagendorff, Krasimira Hristova, Teresa Lopez, Gonzalo de la Morena, Bogdan A Popescu, Martin Penicka, Tolga Ozyigit, Jose David Rodrigo Carbonero, Nico van de Veire, Ralph Stephan Von Bardeleben, Dragos Vinereanu, Jose Luis Zamorano, Yun Yun Go, Stella Marchetta, Alain Nchimi, Monica Rosca, Andreea Calin, Marie Moonen, Sara Cimino, Julien Magne, Bernard Cosyns, Elena Galli, Erwan Donal, Gilbert Habib, Roberta Esposito, Maurizio Galderisi, Luigi P Badano, Roberto M Lang, Patrizio Lancellotti
Aims: To obtain the normal ranges for echocardiographic measurements of left atrial (LA) function from a large group of healthy volunteers accounting for age and gender. Methods and results: A total of 371 (median age 45 years) healthy subjects were enrolled at 22 collaborating institutions collaborating in the Normal Reference Ranges for Echocardiography (NORRE) study of the European Association of Cardiovascular Imaging (EACVI). Left atrial data sets were analysed with a vendor-independent software (VIS) package allowing homogeneous measurements irrespective of the echocardiographic equipment used to acquire data sets...
February 23, 2018: European Heart Journal Cardiovascular Imaging
Ariadna S Szczybelski, Tineke Kampen, Joris Vromans, Edwin T H M Peeters, Martine J van den Heuvel-Greve, Nico W van den Brink, Albert A Koelmans
Currently, risk assessment for oil contamination does not consider behavioral responses of benthos to oil toxicity. Avoidance of oil-contaminated sediment by benthic amphipods, however, may be a highly sensitive endpoint for sub-lethal effects of commonly used distillate fuels. In the present study, the avoidance behavior of temperate freshwater (Gammarus pulex) and marine (Gammarus locusta) amphipods is tested, allowing them to choose between a reference sediment and a Distillate Marine grade A (DMA) oil-spiked sediment...
March 12, 2018: Environmental Toxicology and Chemistry
Thi Huyen Do, Ngoc Giang Le, Trong Khoa Dao, Thi Mai Phuong Nguyen, Tung Lam Le, Han Ly Luu, Khanh Hoang Viet Nguyen, Van Lam Nguyen, Lan Anh Le, Thu Nguyet Phung, Nico M van Straalen, Dick Roelofs, Nam Hai Truong
The scarcity of enzymes having an optimal activity in lignocellulose deconstruction is an obstacle for industrial-scale conversion of cellulosic biomass into biofuels. With the aim of mining novel lignocellulolytic enzymes, a ~9 Gb metagenome of bacteria in Vietnamese native goats' rumen was sequenced by Illumina platform. From the data, 821 ORFs encoding carbohydrate esterases (CEs) and polysaccharide lyases (PLs) serving for lignocellulose pre-treatment, 816 ORFs encoding 11 glycoside hydrolase families (GHs) of cellulases, and 2252 ORFs encoding 22 GHs of hemicellulases, were mined...
March 12, 2018: Journal of General and Applied Microbiology
Nico Holmstock, Marlies Oorts, Jan Snoeys, Pieter Annaert
Hepatic drug transporters play a pivotal role in the excretion of drugs from the body, in drug-drug interactions as well as in drug-induced liver toxicity. Hepatocytes cultured in sandwich configuration are an advantageous model to investigate the interactions of drug candidates with apical efflux transporters in a bio-relevant manner. However, the commonly used 'offline' assays (i.e. that rely on measuring intracellular accumulated amounts after cell lysis) are time and resource consuming while data output is often high and variable...
March 9, 2018: Drug Metabolism and Disposition: the Biological Fate of Chemicals
Federica Pinto, Adrian Tett, Federica Armanini, Francesco Asnicar, Adriano Boscaini, Edoardo Pasolli, Moreno Zolfo, Claudio Donati, Nico Salmaso, Nicola Segata
No abstract text is available yet for this article.
March 8, 2018: Genome Announcements
Ineke Nederend, Eco J C de Geus, Lucia J M Kroft, Jos J M Westenberg, Nico A Blom, Arend D J Ten Harkel
BACKGROUND: Coarctation of the aorta (CoA) is one of the most common congenital heart defects. Due to improved surgical techniques, most patients live into adulthood. However, late complications including hypertension, recoarctation and arrhythmias are common. The autonomic nervous system (ANS) might play a role in the pathology. The aim of this study was to evaluate cardiac ANS activity and cardiac function in children after CoA repair and investigate the relationship between the two...
March 5, 2018: Annals of Thoracic Surgery
Jan Gerard Hoendervanger, Anja F Ernst, Casper J Albers, Mark P Mobach, Nico W Van Yperen
Satisfaction with activity-based work environments (ABW environments) often falls short of expectations, with striking differences among individual workers. A better understanding of these differences may provide clues for optimising satisfaction with ABW environments and associated organisational outcomes. The current study was designed to examine how specific psychological needs, job characteristics, and demographic variables relate to satisfaction with ABW environments. Survey data collected at seven organizations in the Netherlands (N = 551) were examined using correlation and regression analyses...
2018: PloS One
Robbert W van Hamersvelt, Nienke G Eijsvoogel, Casper Mihl, Pim A de Jong, Arnold M R Schilham, Nico Buls, Marco Das, Tim Leiner, Martin J Willemink
We investigated the feasibility and extent to which iodine concentration can be reduced in computed tomography angiography imaging of the aorta and coronary arteries using low tube voltage and virtual monochromatic imaging of 3 major dual-energy CT (DECT) vendors. A circulation phantom was imaged with dual source CT (DSCT), gemstone spectral imaging (GSI) and dual-layer spectral detector CT (SDCT). For each scanner, a reference scan was acquired at 120 kVp using routine iodine concentration (300 mg I/ml). Subsequently, scans were acquired at lowest possible tube potential (70, 80, 80 kVp, respectively), and DECT-mode (80/150Sn, 80/140 and 120 kVp, respectively) in arterial phase after administration of iodine (300, 240, 180, 120, 60, 30 mg I/ml)...
March 8, 2018: International Journal of Cardiovascular Imaging
Nico K Michiels, Victoria C Seeburger, Nadine Kalb, Melissa G Meadows, Nils Anthes, Amalia A Mailli, Colin B Jack
Active sensing using light, or active photolocation, is only known from deep sea and nocturnal fish with chemiluminescent 'search' lights. Bright irides in diurnal fish species have recently been proposed as a potential analogue. Here, we contribute to this discussion by testing whether iris radiance is actively modulated. The focus is on behaviourally controlled iris reflections, called 'ocular sparks'. The triplefin Tripterygion delaisi can alternate between red and blue ocular sparks, allowing us to test the prediction that spark frequency and hue depend on background hue and prey presence...
February 2018: Royal Society Open Science
Gertrud Wiedemann, Nico van Gessel, Fabian Köchl, Lisa Hunn, Katrin Schulze, Lina Maloukh, Fabien Nogué, Eva L Decker, Frank Hartung, Ralf Reski
RecQ DNA helicases are genome surveillance proteins found in all kingdoms of life. They are characterized best in humans, as mutations in RecQ genes lead to developmental abnormalities and diseases. To better understand RecQ-functions in plants we concentrated on Arabidopsis thaliana and Physcomitrella patens, the model species predominantly used for studies on DNA repair and gene targeting. Phylogenetic analysis of the six P. patens RecQ genes revealed their orthologs in humans and plants. Because A. thaliana and P...
March 7, 2018: Plant Cell
Morgane Boone, Andries De Koker, Nico Callewaert
All sequencing experiments and most functional genomics screens rely on the generation of libraries to comprehensively capture pools of targeted sequences. In the past decade especially, driven by the progress in the field of massively parallel sequencing, numerous studies have comprehensively assessed the impact of particular manipulations on library complexity and quality, and characterized the activities and specificities of several key enzymes used in library construction. Fortunately, careful protocol design and reagent choice can substantially mitigate many of these biases, and enable reliable representation of sequences in libraries...
March 5, 2018: Nucleic Acids Research
Anne-Mieke J W Haasnoot, Marco W Schilham, Sylvia Kamphuis, Petra C E Hissink Muller, Arnd Heiligenhaus, Dirk Foell, Kirsten Minden, Roel A Ophoff, Timothy R D J Radstake, Anneke I Den Hollander, Tjitske H C M Reinards, Sanne Hiddingh, Nicoline E Schalij-Delfos, Esther P A H Hoppenreijs, Marion A J van Rossum, Carine Wouters, Rotraud K Saurenmann, J Merlijn van den Berg, Nico M Wulffraat, Rebecca Ten Cate, Joke H de Boer, Sara L Pulit, Jonas J W Kuiper
OBJECTIVES: Uveitis is a visually-debilitating disorder that affects up to 30% of children with the most common forms of juvenile idiopathic arthritis (JIA). The disease mechanisms predisposing only a subgroup of children to uveitis are unknown. To identify genetic susceptibility loci for uveitis in JIA, we conducted a genome-wide association study totalling 522 JIA cases. METHODS: We genotyped two cohorts of JIA patients with ophthalmological follow-up and then imputed the data using a genome-wide imputation reference panel, and an HLA-specific reference panel used for imputing amino acids and HLA types in the major histocompatibility complex (MHC)...
March 7, 2018: Arthritis & Rheumatology
Mark V de Ruiter, Nico J Overeem, Gaurav Singhai, Jeroen J L M Cornelissen
Insight into the assembly and disassembly of viruses can play a crucial role in developing cures for viral diseases. Specialized fluorescent probes can benefit the study of interactions within viruses, especially during cell studies. In this work, we developed a strategy based on FRET to study the assembly of viruses without labeling the exterior of viruses. Instead, we exploit their encapsulation of nucleic cargo, using three different fluorescent ATTO dyes linked to single-stranded DNA oligomers, which are hybridised to a longer DNA strand...
March 7, 2018: Journal of Physics. Condensed Matter: An Institute of Physics Journal
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